M. polymorpha assembly

#File descriptions
Directory Barcodes
run1barcodes.txt: this file contains the barcodes used for the ENA run accessions ERR3184756,ERR3184777-ERR3184779
run2barcodes.txt: this file contains the barcodes used for the ENA run accessions ERR3184780-ERR3184783

Directory Assembly_Nogapsestimated (Gaps between scaffolds/contigs of the v3.1 assembly are padded out with 100 N characters regardless of the estimated size of the gap)
Mpolylinkagemap_Nogapsestimated.chr.fasta:Fasta file containing sequences of the eight linkage groups (denoted as Chr1-Chr8) presented in the manuscript.Gaps between scaffolds/contigs of the v3.1 assembly was filled in with 100 N characters regardless of the estimated size of the gap.
Mpolylinkagemap_Nogapsestimated.fasta:Fasta file containing sequences of the eight linkage groups (denoted as Chr1-Chr8) and all the unassigned scaffolds/contigs of the v3.1 assembly.Headers of unassigned scaffolds/contigs are identical to those used in the v3.1 assembly.Gaps between scaffolds/contigs of the v3.1 assembly was filled in with 100 N characters regardless of the estimated size of the gap.
Mpolylinkagemap_Nogapsestimated.gff3:Annotation file (gff3 format) of the linkage map including annotation of the eight linkage groups and all unassigned contigs/scaffolds of the v3.1 assembly.
Mpolylinkagemap_Nogapsestimated.chain:The chain file describing the assignment of scaffolds/contigs of the v3.1 assembly along the eight linkage groups of the assembly.This file can be used to lift over annotations to from the v3.1 assembly to the eight linkage groups.

Directory Assembly_gapsestimated (Gaps between scaffolds/contigs of the v3.1 assembly correspond to the estimated size of the gap. They are padded put with N characters)
Mpolylinkagemap_gapsestimated.chr.fasta:Fasta file containing sequences of the eight linkage groups (denoted as Chr1-Chr8) presented in the manuscript.Gaps between scaffolds/contigs of the v3.1 assembly was filled in with 100 N characters regardless of the estimated size of the gap.
Mpolylinkagemap_gapsestimated.fasta:Fasta file containing sequences of the eight linkage groups (denoted as Chr1-Chr8) and all the unassigned scaffolds/contigs of the v3.1 assembly.Headers of unassigned scaffolds/contigs are identical to those used in the v3.1 assembly.Gaps between scaffolds/contigs of the v3.1 assembly was filled in with 100 N characters regardless of the estimated size of the gap.
Mpolylinkagemap_gapsestimated.gff3:Annotation file (gff3 format) of the linkage map including annotation of the eight linkage groups and all unassigned contigs/scaffolds of the v3.1 assembly.
Mpolylinkagemap_gapsestimated.chain:The chain file describing the assignment of scaffolds/contigs of the v3.1 assembly along the eight linkage groups of the assembly.This file can be used to lift over annotations to from the v3.1 assembly to the eight linkage groups.